introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

8 rows where transcript_id = 19586951

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
104999303 GT-AG 0 5.346619251578434e-05 2073 rna-XM_013924125.2 19586951 1 4260402 4262474 Limulus polyphemus 6850 GAG|GTACTTCCAT...CCTTTTTTAATA/CCTTTTTTAATA...TGCAG|GAT 0 1 5.666
104999304 GT-AG 0 1.000000099473604e-05 1549 rna-XM_013924125.2 19586951 2 4262545 4264093 Limulus polyphemus 6850 GAG|GTGAGACACT...TTTTCTTTACTT/TTTTTCTTTACT...TATAG|GAG 1 1 9.239
104999305 GC-AG 0 1.000000099473604e-05 4991 rna-XM_013924125.2 19586951 3 4264283 4269273 Limulus polyphemus 6850 CTG|GCAAGTGTTT...TATTTTTTATTT/AAGATTCTCATT...CTAAG|AGC 1 1 18.887
104999306 GT-AG 0 3.9579467081609984e-05 10502 rna-XM_013924125.2 19586951 4 4270091 4280592 Limulus polyphemus 6850 AAG|GTATTGTAAT...TTCTTGTTATAC/TTAGAAGTTACT...TTCAG|TGA 2 1 60.592
104999307 GT-AG 0 0.0006654239926965 5536 rna-XM_013924125.2 19586951 5 4280711 4286246 Limulus polyphemus 6850 CAA|GTAAGCATAT...ATATTTTTAACT/ATATTTTTAACT...ATTAG|CCA 0 1 66.616
104999308 GT-AG 0 1.000000099473604e-05 940 rna-XM_013924125.2 19586951 6 4286482 4287421 Limulus polyphemus 6850 TTG|GTGAGTTTTT...AACATTGTAGCT/TTGTAGCTGAAT...TATAG|GTG 1 1 78.612
104999309 GT-AG 0 1.000000099473604e-05 3111 rna-XM_013924125.2 19586951 7 4287555 4290665 Limulus polyphemus 6850 ATG|GTTAGTGTAA...GGTACTTTATAT/TTTTGTTTTATG...ACTAG|GAA 2 1 85.401
104999310 GT-AG 0 1.7852711443350454e-05 2742 rna-XM_013924125.2 19586951 8 4290751 4293492 Limulus polyphemus 6850 GAG|GTAGGTTATG...ACATTATTAATT/ACATTATTAATT...TACAG|CTA 0 1 89.74

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);